No problem. It's a several step process to create a Pokemon File (.PKM) in PokeGen, however it is, in my opinion, the best software to do so.
First, you must download PokeGen. You can find it here:
http://projectpokemon.org/forums/sho...nd-information.
You can then search for a YouTube video to instruct you how to create a .PKM file, or I can walk you through it. (YouTube may be faster)
Just make sure you do the following things:
>make the .PKM for the right Generation/Game. (i.e. HeartGold/SoulSilver, Diamond, Pearl, Platinum, Black, White (2)) [That can be done from the options tab in PokeGen.]
>The PID is the most important aspect of a .PKM file. But, as you've made Pokemon with the Online PokeSav, this program will only be a slight difference from that, and should only take a little bit of practice to master.
Please PM me when you have downloaded PokeGen, I'll be happy to assist you further. :)
Look forward to hearing from you soon!